[1] "2025-04-29 22:34:52 MDT" [1] "1411" "141205" "d339" [1] "reading in high rate data from /scr/sci/stephens/GO2DAT/DIRECT/141205a.hr" [1] "reading in hr file header" Read 27 items [1] "Parsing HR flags" [1] "Doing high rate calculations (mean, sd, slope, shape)" [1] 86220 63 [1] 86220 [1] 86220 [1] "testing skipping spike filter" [1] 86220 [1] 86220 [1] "recalculating jog averages" [1] "recalculating jog sds" [1] "recalculating jog slopes" [1] "Parsing MR flags" [1] "Calculating derived concentration values" [1] "2025-04-29 22:34:57 MDT" [1] "o2scaleopt = wt, ave o2scale1 = 0.839, ave o2scale2 = 0.757" [1] "Removing 0 MR FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 MR FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 MR FC 2 jog(s) with SP SD > 1000" [1] "11 MR delta diff NA values ( most likely because WTDIFF > 200 )" [1] "recalc: o2scaleopt = wt, ave o2scale1 = 0.839, ave o2scale2 = 0.757" [1] "Removing 0 RC FC 1 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with WT SD > 1000" [1] "Removing 0 RC FC 1 jog(s) with SP SD > 1000" [1] "Removing 0 RC FC 2 jog(s) with SP SD > 1000" [1] "11 RC delta diff NA values ( most likely because WTDIFF > 200 )" [1] "2025-04-29 22:34:57 MDT" [1] "Plotting 1-second data" [1] "2025-04-29 22:34:57 MDT" [1] "reading in high-rate plot titles" [1] "Plotting 1-minute data" [1] "2025-04-29 22:35:18 MDT" [1] "reading in medium-rate plot titles" [1] "Plotting recalculated 1-minute data" [1] "2025-04-29 22:35:19 MDT" [1] "reading in recalculated plot titles" [1] "Removed 11 row(s) with NAs in them ( most likely because WTDIFF > 200 )" [1] "TEMP: 1425 0 TRUE" [1] "Plotting O2 and CO2 concentration data" [1] "2025-04-29 22:35:23 MDT" [1] "Reading in cylinder log" Read 78 records [1] "Finding cylinder IDs" Read 536 records [1] "position 1 cylinder CC339495 description: HS CO2 = 376.63 O2 = -477.4" [1] "position 2 cylinder CB08905 description: MS CO2 = 394.99 O2 = -541.3" [1] "position 3 cylinder CC339490 description: LS CO2 = 404.23 O2 = -635" [1] "position 4 cylinder CC332564 description: LT CO2 = 394.1 O2 = -572.2" [1] "position 5 cylinder CB10100 description: WT1 CO2 = NA O2 = NA" [1] "position 6 cylinder CB10023 description: WT2 CO2 = NA O2 = NA" [1] "Nominal linear calibrations:" [1] "co2scl = 0.944 co2off = 400.58 o2scla = 1 o2offa = 0" [1] "Finding cal and sample periods" [1] "Plotting MR jog shapes" [1] "Median Cal: 9.02 minutes" [1] "Average Cal: 9.02 minutes" [1] "Shortest Cal: 9.01 minutes" [1] "Longest Cal: 9.02 minutes" [1] "Plotting calibration sds and slopes" [1] "cbind(calstart,calend)" calstart calend [1,] 1 2 [2,] 4 6 [3,] 7 8 [4,] 9 12 [1] "calperiods" type posi pose timei timee timea grp co2sig o2sig 2 4 257 266 0.1788907 0.1851535 0.1827191 2 3.881750 381.6895 3 2 267 276 0.1858489 0.1921116 0.1896776 2 -25.377477 529.9956 4 5 277 286 0.1928070 0.1990668 0.1980236 NA -7.146469 436.0196 6 2 556 565 0.3875891 0.3938519 0.3914167 3 -25.437273 527.9644 7 4 566 575 0.3945475 0.4008102 0.3983748 3 3.818781 382.3179 8 3 576 585 0.4015058 0.4077670 0.4067224 3 -5.998664 464.3670 10 4 856 865 0.5963464 0.6026054 0.6001714 2 3.731773 380.1775 11 2 866 875 0.6033010 0.6095603 0.6071264 2 -25.532477 528.5987 13 2 1154 1163 0.8050093 0.8112685 0.8088345 3 -25.647594 526.7742 14 4 1164 1173 0.8119641 0.8182269 0.8157916 3 3.631141 382.5908 15 5 1174 1183 0.8189225 0.8251820 0.8241385 NA -7.390156 439.8247 16 3 1184 1193 0.8258773 0.8321372 0.8310939 3 -6.158023 462.6151 jfcv1 jfcv2 co2slp o2slp co2sd o2sd 2 1.197927 1.327218 1.059400e-03 0.41753833 0.005312553 4.351374 3 1.197873 1.327150 -2.927933e-03 0.52660294 0.007855200 5.427560 4 1.198055 1.327330 -4.806092e-03 -2.80953435 0.003402951 4.028340 6 1.195217 1.324224 -6.785701e-05 1.17503545 0.001949112 3.607892 7 1.194992 1.323992 2.133274e-04 -0.77061194 0.003512096 5.141446 8 1.194776 1.323792 -4.636721e-03 3.94334829 0.011723038 5.161344 10 1.188397 1.316591 3.472038e-03 -0.07101322 0.008620919 2.283552 11 1.188387 1.316583 -2.528251e-03 0.41303533 0.007713041 3.142042 13 1.185924 1.313860 1.594381e-03 -0.82527281 0.004361842 2.922791 14 1.185977 1.313926 1.668285e-03 1.31231103 0.004702506 3.897762 15 1.186238 1.314204 -3.680140e-03 2.18489230 0.002607456 2.910825 16 1.186265 1.314244 -1.358981e-04 -3.15245687 0.002582984 4.382758 [1] "Plotting calibration fits" [1] "Average calibration parameters:" [1] "co2l0 = 400.683 co2l1 = 0.943 co2l0 = 0.001" [1] "co2l0 = -196.71 co2l1 = 0.217" [1] "Plotting calibration parameters" [1] "Plotting calibration data" [1] "29 out of 40 remaining 1-min values OK w abs(diffback+difffwd)/2 < 0.2 and difference from interpolated clean < 0.2 ppm" [1] "11 out of 1258 1-min values rejected as stack air" [1] "11 out of 1258 Line 1 1-min values rejected as stack air" [1] "0 out of 0 Line 2 1-min values rejected as stack air" [1] "JGOFS data found" [1] "LOXY data found" [1] "making html"